BLASTP 2.2.26 [Sep-21-2011]


Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, 
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), 
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs",  Nucleic Acids Res. 25:3389-3402.


Reference for compositional score matrix adjustment: Altschul, Stephen F., 
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.

Query= 007582
         (597 letters)

Database: pdbaa 
           62,578 sequences; 14,973,337 total letters

Searching..................................................done



>pdb|2XUT|A Chain A, Crystal Structure Of A Proton Dependent Oligopeptide (Pot)
           Family Transporter.
 pdb|2XUT|B Chain B, Crystal Structure Of A Proton Dependent Oligopeptide (Pot)
           Family Transporter.
 pdb|2XUT|C Chain C, Crystal Structure Of A Proton Dependent Oligopeptide (Pot)
           Family Transporter
          Length = 524

 Score = 39.7 bits (91), Expect = 0.005,   Method: Compositional matrix adjust.
 Identities = 27/105 (25%), Positives = 49/105 (46%), Gaps = 10/105 (9%)

Query: 358 PLLFMSILLPLYEFFFVPFARKITGHPSGITQLQRVGIGLVLSAVSMTVAGLVEVIRRNA 417
           PLL M +L+P   F   P   ++      +T L+++G G+ ++ +S  V G ++++    
Sbjct: 345 PLLVM-LLIPFNNFVLYPAIERMG---VKLTALRKMGAGIAITGLSWIVVGTIQLMMDGG 400

Query: 418 FNETPPKQISLFWLSFQYCIFGIADMFTFIGLLEFFYKEAPAGMK 462
                   +S+FW    Y +    ++      LEF Y +AP  MK
Sbjct: 401 ------SALSIFWQILPYALLTFGEVLVSATGLEFAYSQAPKAMK 439



 Score = 37.0 bits (84), Expect = 0.030,   Method: Compositional matrix adjust.
 Identities = 39/163 (23%), Positives = 65/163 (39%), Gaps = 33/163 (20%)

Query: 51  AGASNTLTNFFGSTFLLCLVGGFISDTFLSRFATCLIFGTLEVLALVMLTIQAYSKNLHP 110
           A A +   +F    +   L+GG+I+D F  ++ T L    +  +    L I  +S     
Sbjct: 54  AVAKDVFHSFVIGVYFFPLLGGWIADRFFGKYNTILWLSLIYCVGHAFLAIFEHS----- 108

Query: 111 PDCGKSSCLKGAIAAYFYGSLYLYSFGCGGNRGTLPAFGAGQFDENDPKGAKALASYFNF 170
                   ++G     FY  L+L + G GG +  + +F   QFD+++   A+     F F
Sbjct: 109 --------VQG-----FYTGLFLIALGSGGIKPLVSSFMGDQFDQSNKSLAQKAFDMFYF 155

Query: 171 --------------YLLATTVAAV-IGVTGIVYVFTEKSWWLG 198
                          LL    AAV  G+ G++       +WLG
Sbjct: 156 TINFGSFFASLSMPLLLKNFGAAVAFGIPGVLMFVATVFFWLG 198


  Database: pdbaa
    Posted date:  Mar 3, 2013 10:34 PM
  Number of letters in database: 14,973,337
  Number of sequences in database:  62,578
  
Lambda     K      H
   0.324    0.139    0.419 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 16,223,324
Number of Sequences: 62578
Number of extensions: 626618
Number of successful extensions: 1132
Number of sequences better than 100.0: 2
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 1129
Number of HSP's gapped (non-prelim): 3
length of query: 597
length of database: 14,973,337
effective HSP length: 104
effective length of query: 493
effective length of database: 8,465,225
effective search space: 4173355925
effective search space used: 4173355925
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 54 (25.4 bits)